Rapid detection of bacterial seed-borne disease Xanthomonas translucene in wheat using loop-mediated isothermal amplification (LAMP) assay in Iran

Nazari, Fahimeh; Jafari, Hossein; Ghasemi, Abolghasem

doi:10.48311/jcp.2024.1664

Rapid detection of bacterial seed-borne disease Xanthomonas translucene in wheat using loop-mediated isothermal amplification (LAMP) assay in Iran

https://doi.org/10.48311/jcp.2024.1664

Volume 13, Issue 2
June 2024

Pages 179-189

Document Type : Original Research

Authors

F. Nazari

H. Jafari

A. Ghasemi

Department of Plant Disease Research, Iranian Research Institute of Plant Protection (IRIPP), Agricultural Research Education and Extension Organization (AREEO), Tehran, Iran.

Abstract

Bacterial leaf streak (BLS) is one of the most important seed borne diseases of cereals, especially in wheat and barley. This disease can cause yield loss of up to 40% by producing dark brown spots on the glumes, called black chaff. Although this disease has spread widely in Iran recently, a quick and economical method for molecular and accurate detection of the disease agent, Xanthomonas translucene, has not been identified in the country. Quick and accurate detection of the bacteria in seed masses plays an important role in disease management. In this research, the development of a diagnostic kit for the causal agent of wheat bacterial leaf streak disease based on LAMP (Loop Mediated Isothermal Amplification) was performed by designing specific primers based on two new housekeeping genes rpoD and dnaK, which have not been used as LAMP targets previously). The serial dilution method of the bacterium was used to determine the sensitivity of the designed primers. The efficiency of the diagnostic kit was evaluated by collecting commercial wheat seed masses from different regions of the country and using the pure culture of the bacteria. The results showed that the primers designed based on the rpoD gene were the most effective. These primers detected up to 3.5 x 10² bacteria cells in one milliliter. The specificity of the primers was proved by performing the LAMP reaction on different genera of wheat pathogenic bacteria. The results of this project can be used for the rapid detection of X. translucense in wheat seeds and can be used as one of the management strategies for preparing healthy seeds.

Keywords

Bacterial leaf streak disease

kit

LAMP

Subjects

Plant Disease Management

Alizadeh, A., Rahimian, H. 1989. Bacterial leaf streak of gramineae in Iran. Bulletin OEPP/EPPO, 19: 113–117
Alizadeh, A., Benetti, V., Sarrafi, A., Barrault, G., Albertini, L. 1995. Genetic analysis for partial resistance to an Iranian strain of bacterial leaf streak (X. campestris pv. hordei) in barley. Plant Breeding, 113P: 323-326
Alizadeh, A., Barrault, G., Sarrafi, A., Rahimian, H., Albertini, L. 1995a. Identification of bacterial leaf streak of cereals by their phenotypic characteristics and host range in Iran. European Journal of Plant Pathology, 101:225-229
Alizadeh, A., Dechamp-Guillaume, G., Sarrafi, A., Rahimian, H., Barrault, G. 1996. Electrophoretic analysis of total and membrane proteins of Xanthomonas campestris pathovars, the causal agents of the leaf streak of cereals and grasses in Iran. Journal of Phytopathology, 144:97–101
Alizadeh, A., Arlat, M., Boucher, C. A., Barrault, G., Sarrafi, A. 1997. RFLP Analysis of Iranian strains of Xanthomonas campestris from Cereals and Grasses. Plant Disease, 81: 31-35
Almasi, M. A., Erfanmanesh, M., Jafary, H. 2013. Visual detection of Potato Leafroll virus by loop-mediated isothermal amplification of DNA with the GeneFinderTM dye. Journal of virological methods, 192: 51-54
Aslani, S., Garoosi, G., Jafary, H. 2017. Using a Loop-Mediated Isothermal Amplification (LAMP) Assay and direct DNA extraction method from wood for rapid detection of Verticillium dahliae in Olive trees. Biosciences, biotechnology research Asia, 14(2), 727-734
Bahrami, A., Shah Hosseini, M. H., Azadmanesh, K., Noormohammadi, Z., Muslimi, E., Jadali, F. 2019. Optimizing the loop isothermal amplification technique (LAMP) for the detection of herpes simplex virus types 1 and 2. Scientific Journal of Kurdistan University of Medical Sciences, 16: 56-63
Boosalis, M. G. 1952. The epidemiology of Xanthomonas translucens (J. J. and R.) Dowson on cereals and grasses. Phytopathology, 42: 387-395
Cunfer, B. M. 1988. Bacterial disease of wheat and their potential importance in tropical regions. In: Klatt, A. (ed) wheat production constraints in tropical environments, Cimmyt, Mexico, 263-273.
Curland, R. D., Gao, L., Bull, C. T., Vinatzer, B. A., Dill-Macky, R., Van Eck, L., Ishimaru, C. A. 2018. Genetic diversity and virulence of wheat and barley strains of Xanthomonas translucens from the Upper Midwestern United States. Phytopathology, 108: 443–453
Duveiller, E., Maraite, H. 1993. Study on yield loss due to Xanthomonas campestris pv. undulosa in wheat under high rainfall temperate conditions. Z Pflanzenkr Pflanzenschutz, 100: 453-459
Fang, X. E., Li, J., Chen, Q. 2008. One new method of nucleic acid amplification—loop-mediated isothermal amplification of DNA. Virologica sinica, 23: 167-172.
Fukuta, S., Kato, S., Yoshida, K., Mizukami, Y., Ishida, A., Ueda, J., Ishimoto, Y. 2003. Detection of tomato yellow leaf curl virus by loop-mediated isothermal amplification reaction. Journal of virological methods, 112: 35-40
Gotoh, K., Nishimura, N., Ohshima, Y., Arakawa, Y., Hosono, H., Yamamoto, Y., Ozaki, T., Iwata, Y., Nakane, K., Funahashi, K. 2012. Detection of Mycoplasma pneumoniae by loop-mediated isothermal amplification (LAMP) assay and serology in pediatric community-acquired pneumonia. Journal of Infection and Chemotherapy, 18(5):662-7
Jones, L. R., Johnson, A. G., Reddy, C. S. 1916. Bacterial blight of barley and certain other cereals. Science, 44: 432–433
Karami, A., Bagheri, B., Ahmadi, Z., Pourali, F. 2012. Comparing Fluorescent Loop-Mediated Isothermal Amplification and PCR in detecting Salmonella. Journal of Mazandaran University of Medical Sciences, 22(95):48-55
Langlois, P. A., Snelling, J., Hamilton, J. P., Bragard, C., Koebnik, R., Verdier, V., Triplett, L. R., Blom, J., Tisserat, N. A., Leach, J. E. 2017. Characterization of the Xanthomonas translucens complex using draft genomes, comparative genomics, phylogenetic analysis, and diagnostic LAMP assays. Phytopathology, 107: 519–527
Loens, K., Ursi, D., Goossens, H., Ieven, M. 2003. Molecular diagnosis of Mycoplasma pneumoniae respiratory tract infections. Journal of clinical microbiology, 41(11):4915-23.
Mori, Y., Nagamine, K., Tomita, N., Notomi, T. 2001. Detection of loop-mediated isothermal amplification reaction by turbidity derived from magnesium pyrophosphate formation. Biochemical and biophysical research communications, 289 (1):150-4
Nagamine, K., Watanabe, K., Ohtsuka, K., Hase, T., Notomi, T. 2001. Loop-mediated isothermal amplification reaction using a nondenatured template. Clinical chemistry, 47(9):1742-3
Nagamine, K., Hase, T., Notomi, T. 2002. Accelerated reaction by loop-mediated isothermal amplification using loop primers. Molecular and cellular probes, 16(3): 223-229
Notomi, T., Okayama, H., Masubuchi, H., Yonekawa, T., Watanabe, K., Amino, N., Hase, T. 2000. Loop-mediated isothermal amplification of DNA. Nucleic Acids Research, 28(12): E63
Okada, K., Chantaroj, S., Taniguchi, T., Suzuki, Y., Roobthaisong, A., Puiprom, O., Honda, T., Sawanpanyalert, P. A. 2010. Rapid, simple, and sensitive loop-mediated isothermal amplification method to detect toxigenic Vibrio cholerae in rectal swab samples. Diagnostic Microbiology and Infectious Disease, 66(2): 135-139
Parida, M., Sannarangaiah, S., Dash, P. K., Rao, P. V., Morita, K. 2008. Loop-mediated isothermal amplification (LAMP): a new generation of innovative gene amplification technique; perspectives in clinical diagnosis of infectious diseases. Reviews in Medical Virology, 18(6):407-21
Pruss, G. J., Nester, E. W., Vance, V. 2008. Infiltration with Agrobacterium tumefaciens induces host defense and development-dependent responses in the infiltrated zone. Molecular Plant-Microbe Interactions, 21: 1528– 1538
Rademaker, J. L. W., de Bruijn, F. J. 1997. Characterization and classification of microbes by rep-PCR genomic fingerprinting and computer assisted pattern analysis. In DNA Markers: Protocols, Applications and Overviews Edited by Caetano-Anolles G, Gresshoff PM. John Wiley, New York, pp 151–171
Saharan, P., Dhingolia, S., Khatri, P., Singh- Duhan, J., Gahlawat, S. 2014. Loop-mediated isothermal amplification (LAMP) based detection of bacteria: a review. African Journal of Biotechnology, 13(19):1920-8
Sands, D. C., Mizrak, G., Hall, V. N., Kim, H. K., Bockelman, H. E., Golden, M. J. 1986. Seed transmitted bacterial diseases of cereals: Epidemiology and control. Arab Journal of Plant Protection, 4:127-125
Schaad, N. W., Donaldson, R. C. 1980. Comparison of two methods for detection of Xanthomonas campestris in infected crucifer seeds. Seed Science and Technology, 8:383-391
Schaad, N., Forster, R. 1985. A semi selective agar medium for isolating Xanthomonas campestris pv. translucens from wheat seeds. Phytopathology, 75: 260-263
Shane, W. W., Baumer, J. S., Teng, P. S. 1987. Crop losses caused by Xanthomonas streak on spring wheat and barley. Plant Disease, 71: 927-930
Stromberg, K. D., Kinkel, L. L., Leonard, K. J. 1999. Relationship between Xanthomonas translucens pv. translucens and Bacterial leaf streak severity on wheat seedlings. Phytopathology, 89: 131-135
Swings, J. G., Civerolo, E. L. 1993. Xanthomonas. 1ed. London, Chapman, and Hall. 399pp.
Tubajika, K. M., Tillman, B. L., Russin, J. S., Clark, C. A., Harrison, S. A. 1998. Relationship between flag leaf symptoms caused by Xanthomonas translucens pv. translucens and subsequent seed transmission in wheat. Plant Disease, 82: 1341–1344
Tillman, B. L. 1994. Breeding wheat for resistance to bacterial streak caused by Xanthomonas campestris pv. translucens. Ph. D. thesis. Louisiana State University. Baton Rouge, 150 pp.
Tillman, B. L., Kursell, W.S., Harrison, SA, Russian, J. S. 1999. Yield loss caused by bacterial streak in winter wheat. Plant Disease, 83: 609-614

XML

PDF 658.59 K